Sequence
atgc intronic sequence ATGC exonic sequencegtacactctcccaatattgtcatgagttctggtgattcctcaagttagttgctgaatactctatgtataaatcctttttctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 20
-----gtacactctcccaatattgtcatga-gttctggtgattcctcaagtt-agttgctgaatactctatgtataaatccttttt-----ctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
| |||| |||||| | | || | | | | || | | | | | | || || ||||| |||| || ||||||||||||||||||| || ||||||||||||||| |||||||||||||||| || |||||||||||||| |||||||||||||||||||||||||| |
gttactctccatctcatcatattgcaaacatattatcatactcacacagttggaatctcacagtgctttactcttaaattactttttccttcttagGATGTTGTCACAGAGAACGAATTTGAGAAAAGGCTTCTGGCAGATGTTATACCACCTAATGACATTGGAGTCACCTTTGATGATATTGGAGCCTTGGAAA
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 18
---------------------------gtacactctcccaatattgtcatgagttctggtgattcc-tcaagttagttgctgaatactctatgtataaatcctttttct----cagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
| ||| ||| | | | || |||| ||| | |||| | || ||| ||| | |||||| |||| || ||||||||||| ||||| ||||| ||||| || ||||||||||| |||||||| || || | |||||||| ||||| ||||||||||||||||| | || |
gtgattgtttgtgcccttttgctacttacgtgtcgttccagctttgc--ttattagaagttattctgtcaggagagttcataaacactgtattt-taaatcgttttgcttgctcagGATGTTGTGACAGAAAATGAATTTGAAAAGAGGCTTTTGGCTGATGTTATTCCACCTAGTGACATTGATGTTACTTTTGATGATATTGGAGCTCTTGAAA
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G17940.1 (Glycine max), 3'ss of exon 20
----------------------------------------------------------------------gtacactctcccaatattgtcatgagttctggtgattcctcaagttagttgctgaatactctatgtataa--atcctttttct------------cagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
||| | || | || | | | | || |||| || || |||| || | | | || |||| | || | ||||||||||| ||||| || |||||||| || ||||||||||| |||||||| || || || |||||||| ||||| || |||||||||||||| | || |
gtgattgttatggagttttgctactttgattgtgggagatagtgacatgacatccagtagtttgttccgaacttactgcttggaagttattctgt-tgatagagtttaatcaatttttttcacgaatgctgtgttttgaattatccctcttatgttttttgaaatcagGATGTTGTAACAGAAAACGAGTTTGAAAAGAGGCTTTTGGCTGATGTTATTCCACCTAACGACATTGGTGTTACTTTCGATGATATTGGAGCTCTTGAAA
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 19
-------------------------------------------------------------gtacact-ctcccaatattgtcatgagttctg------gtgattcctcaagttagttgctgaatactc-tatgtataaatcctttttctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
| || | || | |||| | |||| || ||| | | || | | || ||| | | |||| |||||||| || || |||||||| |||||||||| ||| | || |||||||| || |||| ||| ||||| || || ||||||||||||||||| || || |
gtaatttaatataagatgttacaaacttaaacctttttccatcatattttgtggagatattttgcattactactggtattcatctagtttctttaccttgtcattttttgaattgtgggattgtcacctgtattcttggaattgtttttccagGATGTGGTTACTGAGAATGAATTTGAGAAAAAACTTCTTGCTGATGTTATTCCACCAACTGATATTGGGGTCACATTTGATGATATTGGAGCTTTAGAAA
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 3
----------------------------------------------------------------------------gtacactctcccaatattgtcatgagttctggtgattcctcaa--gttagttgctgaatactctatgtataaatcctttttctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
| | | | | | | | || | ||| | | ||| | |||||| || | | | || |||||||||||| ||||| || |||||||| || ||||||||||| |||||||| || || ||||||||||| ||||| ||||||||||||||||| | || |
gtgattgttatggacttttgctgctttgattgtgagagatagtgacatccagtagtttgttcccaacttactgcttggaagttattctgttgatagagtttaatcgatttatttcatgaatgttgtgttctgaattatccctcttatgttttttgaaatcagGATGTTGTAACAGAAAACGAGTTTGAAAAGAGGCTTTTGGCTGATGTTATTCCACCTAATGACATTGGTGTTACTTTTGATGATATTGGAGCTCTTGAAA
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 16
---------------------------gtacactctcccaatattgtcatgagttctggtgattcc-tcaagttagttgctgaatactctatgtataaatcctttttct----cagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
| | ||| ||| | | | | || |||| || | |||| | || ||| ||| | |||||| |||| || ||||||||||| ||||| ||||| ||||| || ||||||||||| |||||||| || || | |||||| | ||||| ||||||||||||||||| | || |
gtgattgtttgtgcccttttgctacttacatgtgattccagctttgc--ttattacaagttattctgtcgggagagttcataaacactgtat-tctaaatcattttgcttgctcagGATGTTGTGACAGAAAATGAATTTGAAAAGAGGCTTTTGGCTGATGTTATTCCACCTAGTGACATCGATGTTACTTTTGATGATATTGGAGCTCTTGAAA
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 15
--------------------------------------------------------gtacactctcccaatattgtcatg-----agttctggtgattcctcaagtt---agttgctgaatactc-----tatgtataaatcctttttctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
|| | | || || || |||| | | ||| | | | ||| |||| || ||| | | |||| |||||||| || || |||||||| |||||||||| ||| | || |||||||| || |||| || ||||| || || ||||||||||||||||| || || |
gtaatttaatattagatgttacaattataaacctttctccatcatattttgtggagatattttgcattactactggtatccatctagtttctttaccttgtcatgatttgaattgtggaattgtcacctgtattctttgaattgtttttccagGATGTGGTTACTGAGAATGAATTTGAGAAAAAACTTCTTGCTGATGTTATTCCGCCAACCGATATTGGGGTCACATTTGATGATATTGGAGCTTTAGAAA
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 20
gtacactctcc-caatattgtcatgagttctggtgattcctcaagttagttgctgaatactctatgtataaatcctttttctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
||| | | | | || | | || | | || ||||||| | ||| || || || || |||||||||||||| ||||| ||||| ||||||||||||||| | || |||||||| || ||| ||||||||| || || |||||||||||||| ||| |||| |
gtaatttttgtaccttcatgcaactaatttttatc-tttaacaagtta--tattgattaaa--atcaatttatttccaatctcagGATGTTGTAACAGAAAATGAATTTGAGAAAAGGCTTCTAGCTGATGTTATTCCACCATCTGACATTGGGGTCACATTTGATGATATTGGGGCCCTGGAAA
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 19
----------------------------------gtacactctcccaatattgtcatgagttctggtgattcctcaagttagttgctga-atactctatgtataaatcctt--tttctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
|| |||| || | ||| | || | | |||||| || | | || | | | | | || ||| ||||||||| || || |||||||| |||||||| | ||| | |||||||||| || || | ||| |||||||| || ||||||||||||||||| || || |
gtaaagttgcagatgtctctataaattcatggctctattctctaaaaaaaacctcacaaattaatccagtctatgaagttatttaatcacatgttggaatttttatgccaaaatttttcagGATGTGGTTACTGAGAATGAATTTGAGAAGAAACTTCTTTCAGATGTTATTCCACCTAGTGATATTGGAGTAACTTTTGATGATATTGGAGCTTTAGAAA
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
lower sequence: PP1S27_195V6.1 (Physcomitrella patens), 3'ss of exon 15
------------------gtacactctcccaatattgtcatgagttctggtgattcctcaagttagttgctgaatactctatgtataaatcctttttctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
| | | || | | | || ||||| || | | | | | | | | ||||||||||||||| ||||||||||||||||| | ||| ||| | || ||||| || || |||| |||| || ||||| || | || || |||||||| |
tattgtgtacggtacgtggaagaaaaaaaaaaaaaaaaaaaaaaaaaaaaaatgctttcgagttatttag-aagtggtattgacgttg-tggtgtggatcagGATGTTGTCACTGAGAATGAGTTTGAGAAGATGCTCTTGCCGGAGGTTATCCCACCTGATGAGCTTGGGGTAACCTTCGACCACATCGGTGCCTTGGATA
upper sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 5
lower sequence: PP1S3_184V6.1 (Physcomitrella patens), 3'ss of exon 16
----gta-cactctcccaatattgtcatgagttctggtg-attcctcaagttagttgctgaatactctatgtataaatcctttttc----------tcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
|| | || | ||| || ||| | | | || | | || | |||| | | || | ||||||||||||||| || |||||||||||||| | ||| ||| | || || || ||||| |||| ||||||| || || ||| ||||||| ||| |||| |
agttgtgtctcttgctttatactgatgagagatatcatatggtcaaccattttgcgcctgaggtatagagaagtaggattgacgttgggatgtggatcagGATGTTGTCACTGACAATGAGTTTGAGAAGATGCTCTTGCCGGAAGTCATCCCTCCTGATGAGCTTGGAGTAACATTCGATCATATTGGTGCCCTGGACAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|32934898|gb|CF039710.1|CF039710EST: TGCTCCAAAGCATGCAAAATGATAACAAGAGCTCCAAAAAATCACTGAAG GATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATA
genomic: TGCTCCAAAGCATGCAAAATGATAACAAGAGCTCCAAAAAATCACTGAAGgtacactctc ... tttttctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtgattcctcaagttagttgctgaatactctatgtataaatcctttttctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
tcctttttctc CT-rich tract
tataaatccttttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacactctcccaatattgtcatgagttctggtgattcctcaagttagttgctgaatactctatgtataaatcctttttctcagGATGTTGTCACAGAGAATGAGTTTGAGAAAAGGCTTTTGGCAGATGTTATACCTCCAAATGACATTGGAGTTACCTTTGATGATATTGGAGCCTTGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA